A Brain Computer Interface (BCI) for interactive 3-D flight simulation is presented. The BCI uses Bayesian factor analysis algorithms to distinguish thought actions based on electro encephalography (EEG) or magneto encephalography (MEG) brain signals. Data has been collected from 5 subjects yielding 90% positive performance in MEG mid and post-movement activity. A BCI software driver translates real-time MEG thought patterns into left or right actions. This driver has been applied to flight simulation software enabling the user to fly left or right simply by thinking in the chosen direction. The BCI driver can be linked to any software, replacing the keyboard or mouse with inputs derived from a user's thought.